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Open Access Research article

TC-motifs at the TATA-box expected position in plant genes: a novel class of motifs involved in the transcription regulation

Virginie Bernard1, Véronique Brunaud1 and Alain Lecharny12*

Author Affiliations

1 Unité de Recherche en Génomique Végétale (URGV), UMR INRA 1165 -CNRS 8114 -UEVE, 2 Rue Gaston Crémieux, 91057 Evry Cedex, France

2 Université Paris-Sud, Institut de Biotechnologie des Plantes (IBP), UMR CNRS 8618 -UPS, Bâtiment 630, 91405 Orsay Cedex, France

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BMC Genomics 2010, 11:166  doi:10.1186/1471-2164-11-166

Published: 12 March 2010

Additional files

Additional file 1:

Effect on the score of an extension by pyrimidines of TC[-39,-26]-PLMs. First column, motifs that do not exhibit an increase in their SMS (in parentheses) when extended. Second column, motifs that, when extended exhibit an increase in their original SMS due to the generation of an other 6-base-long motif (underlined sequence) characterized by a higher SMS (underlined SMS). Note that the SMS of the 7- or 8-base-long motifs are all lower than the SMS of the underlined 6-base-long motifs. Third column, motifs that can be extended in 7- or 9-base-long motifs. Note that the two long extensions are made of three repeats of TCT.

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